nanoQC

Quality control tools for long read sequencing data aiming to replicate some of the plots made by fastQC. This is an immature tool and I welcome all contributions.

Creates dynamic plots using bokeh. For an example see here

INSTALLATION

pip install nanoQC

or

conda install -c bioconda nanoqc

USAGE

nanoQC [-h] [-v] [-o OUTDIR] fastq

positional arguments:
  fastq                 Reads data in fastq.gz format.

optional arguments:
  -h, --help            show this help message and exit
  -v, --version         Print version and exit.
  -o, --outdir OUTDIR   Specify directory in which output has to be created.
  -l, --minlen int      Minimum length of reads to be included in the plots
                        This also controls the length plotted in the graphs
                        from the beginning and end of reads (length plotted = minlen / 2)

CITATION

If you use this tool, please consider citing our publication.

CONTRIBUTIONS

Thanks to:

• Jasper Ouwerkerk (JasperO98) for improving how reads are selected (v0.8.0)